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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATCGCACTGGGAGCTGCTAAAGGGCTTGCTTGCCTCCACAATGCTCAAAGGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgttaaccacttcctcatgcttccttctcctttttcagttccattgctatcatccaatggtaatacatatatgtttgacatatttatcttcttgtttccgttgccacag

Basic information

species Zea mays
transcript GRMZM2G007283_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G007283_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os11g02830.2 (Oryza sativa), 5'ss of exon 4
AATCGCACTGGGAGCTGCTAAAGGGCTTGCTTGCCTCCACAATGCTCAAAGGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgttaaccacttcctcatgcttccttctcctttttcagttccattgctatcatccaatggtaatacatatatgtttgacat------atttatcttcttgtttccgttgccacag
 || ||| | |||||||| |||||| | |||||||||||||||||| |||||||  | |||||||| ||||||||||||||||||||||| |||||||| |||||||    | || ||| |     |  ||| |  ||||||  |||  ||     ||||   ||| ||||  || || |||  |||      ||||||||| || ||| |  |  |||||
GATTGCATTAGGAGCTGCCAAAGGGTTAGCTTGCCTCCACAATGCTGAAAGGCCAATTATCTACAGGGATTTCAAGACATCAAATATTCTGCTGGACTCAgttgagt----agcatttcttgccaatatcttgttttttttcctttctcttctatgcatctgttgggaatatgtaaatatttttcataatagcatttatctt-ttatttgcacttacacag

upper sequence: GRMZM2G007283_T02 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os12g02810.1 (Oryza sativa), 5'ss of exon 4
AATCGCACTGGGAGCTGCTAAAGGGCTTGCTTGCCTCCACAATGCTCAAAGGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgttaaccacttcctcatgcttccttctcctttttcagttccattgctatcatccaatggtaatacatatatgtttgacat------atttatcttcttgtttccgttgccacag
 || ||| | || ||||| |||||| | |||||||||||||||||| |||||||  | |||||||| ||||||||||||||||||||||| |||||||| |||||||   |    |||    |||  |  || |  |||| |  || |  | ||||   |   ||| ||||  || || |||  |||      ||||||||| || ||| |  |  |||||
GATTGCATTAGGGGCTGCCAAAGGGTTAGCTTGCCTCCACAATGCTGAAAGGCCAATTATCTACAGGGATTTCAAGACATCAAATATTCTGCTGGACTCAgttgagtagcattt-cttgtcaatgtcttgttttttttttcc--tttctcttctatg--ctgttgggaatatgtaaatatttttcataataacatttatctt-ttatttacacttacacag

upper sequence: GRMZM2G007283_T02 (Zea mays), 5'ss of exon 4
lower sequence: AT5G01020.1 (Arabidopsis thaliana), 5'ss of exon 3
AATCGCACTGGGAGCTGCTAAAGGGCTTGCTTGCCTCCACAATGCTCAAAGGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgttaaccacttcctcatgcttccttctcctttttcagttccattgctatca----tccaatggtaatacatatatgtttgacatatttatcttcttgtttccgttgccacag
 || || || |||||||| ||||| ||||||| ||||||||||||| |||| || || || || || ||||||||||| || ||||| || || ||||| ||     ||||  |  ||| |  |||||        ||  ||      ||||  |  |    ||||    ||||| ||   || |||   |  | | | |   |               
GATTGCTCTTGGAGCTGCGAAAGGCCTTGCTTTCCTCCACAATGCTGAAAGACCGGTTATTTATAGGGATTTCAAGACTTCCAATATACTGCTTGACTCCgtaagcagttattcttttctttctgctttgccaaagttgctccaagatattgggaatacctttccacaactaatatatccttgattgggctgatgaaccttcag---------------

upper sequence: GRMZM2G007283_T02 (Zea mays), 5'ss of exon 4
lower sequence: Vv08s0056g00150.t01 (Vitis vinifera), 5'ss of exon 4
AATCGCACTGGGAGCTGCTAAAGGGCTTGCTTGCCTCCACAATGCTCAAAGGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgttaaccacttcctcatgcttccttctcc----tttttcagttccattgctatcatccaatggtaatacatatatgtttgacatatttatcttct-tgtttccgttgccacag
 || || ||||| ||||| ||||||||||||| |||||| |||||| |||||||||| |||||  | || ||||| || || |||||  || | ||||||||  |||    | || ||| | |  |  | ||  ||      |||   |  |||||| |||||   |   |  | ||    |||||  | |  | |||  |  ||  ||    |      
GATTGCTCTGGGTGCTGCGAAAGGGCTTGCTTTCCTCCATAATGCTGAAAGGCCTGTAATCTATCGGGACTTCAAAACGTCTAATATATTATTAGACTCTgt-aagt----agcatttcttaaaaccacattagccaagacatttttttctcattgccatcatgggagaatgcttcactcctgtttaccctgctaatcaccggtgaatctacag------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|67022281|gb|CO451030.1|CO451030
EST:     GGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCT                         GATTATACTGCTAAGCTGTCTGACTTTGGCCTGNCAAAAGCTGGCCCTGAA
genomic: GGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgtt ... gttgccacagGATTATACTGCTAAGCTGTCTGACTTTGGCCTGGCAAAAGCTGGCCCTGAA
EST: gi|148957429|gb|EC903492.2|EC903492
EST:     GGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCT                         GATTATACTGCTAAGCTGTCTGACTTTGGCCTGGCAAAAGCTGGCCCTGAA
genomic: GGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgtt ... gttgccacagGATTATACTGCTAAGCTGTCTGACTTTGGCCTGGCAAAAGCTGGCCCTGAA
EST: gi|74234771|gb|DT642685.1|DT642685
EST:     GGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCT                         GATTATACTGCTAAGCTGTCTGACTTTGGTCTGGCAAAAGCTGGCCCTGAA
genomic: GGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgtt ... gttgccacagGATTATACTGCTAAGCTGTCTGACTTTGGCCTGGCAAAAGCTGGCCCTGAA
EST: gi|78081509|gb|DV509921.1|DV509921
EST:     GGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCT                         GATTATACTGCTAAGCTGTCTGACTTTGGCCTGGCAAAAGCTGGCCCTGAA
genomic: GGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgtt ... gttgccacagGATTATACTGCTAAGCTGTCTGACTTTGGCCTGGCAAAAGCTGGCCCTGAA
EST: gi|74234770|gb|DT642684.1|DT642684
EST:     GGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCT                         GATTATACTGCTAAGCTGTCTGACTTTGGCCTGGCAAAAGCTGGCCCTGAA
genomic: GGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgtt ... gttgccacagGATTATACTGCTAAGCTGTCTGACTTTGGCCTGGCAAAAGCTGGCCCTGAA
EST: gi|149102573|gb|EE188233.2|EE188233
EST:     GGCCTGTCATCTACAGAGATTTCAAGACATCNAATATTCTACTGGACTCT                         GATTATACTGCTAAGCTGTCTGACTTTGGCCTGGCAAAAGCTGGCCC
genomic: GGCCTGTCATCTACAGAGATTTCAAGACATCAAATATTCTACTGGACTCTgttgagtgtt ... gttgccacagGATTATACTGCTAAGCTGTCTGACTTTGGCCTGGCAAAAGCTGGCCC